In fawda123/fastablast: Functions for Mothur Fasta Files and Blast

This is the development repository for the fastablast package. Functions within this package can be used to format Mothur fasta files for use with Blast and retrieval of information from Blast output files.

Installing the package

The development version of this package can be installed as follows:

install.packages('devtools')
library(devtools)
install_github('fawda123/fastablast')
library(fastablast)

devtools::load_all()

Using the functions

Format a fasta file for BLAST with formfst:

# path to input file
flin <- 'inst/fst_ex.fasta'

# execute
formfst(flin)

Save the file:

# file name
flout <- 'out.txt'

# execute
formfst(flin, flout)

Retrieve relevant info from BLAST file with formbls:

# path to input file
flin <- 'inst/bls_ex.txt'

# execute
formbls(flin)

Save the file:

# file name
flout <- 'out.txt'

# execute
formbls(flin, flout)

fawda123/fastablast documentation built on May 6, 2019, 10:14 a.m.